Variant report

Variant	rs9501677
Chromosome Location	chr6:29497002-29497003
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	HMGN3	chr6:29496760-29497171	K562	blood:	n/a	n/a

Variant related genes	Relation type
LINC01015	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11970406	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11970429	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11970475	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16895067	0.89[ASN][1000 genomes]
rs16895070	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17184114	0.82[ASN][1000 genomes]
rs17184255	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2076484	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2076486	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2076487	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2272991	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2294744	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2294746	0.89[EUR][1000 genomes]
rs3025657	0.85[ASN][1000 genomes]
rs3025669	0.85[ASN][1000 genomes]
rs57241384	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58008302	0.85[ASN][1000 genomes]
rs59731351	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59802757	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60219685	0.85[ASN][1000 genomes]
rs64036	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6456964	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6908631	0.85[ASN][1000 genomes]
rs6913746	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6915177	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6920668	0.85[ASN][1000 genomes]
rs6931702	0.85[ASN][1000 genomes]
rs6933331	0.85[ASN][1000 genomes]
rs73402748	0.85[ASN][1000 genomes]
rs73402770	0.85[ASN][1000 genomes]
rs73402788	0.82[ASN][1000 genomes]
rs7739905	0.85[ASN][1000 genomes]
rs7757931	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9461536	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9461538	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9468551	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3424039	chr6:29439297-29504564	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv601228	chr6:29496220-29500287	Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9501677	ZNRD1	cis	lymphoblastoid	seeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29496400-29497200	Enhancers	Pancreas	Pancrea
2	chr6:29497000-29515000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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